Literature DB >> 30936208

Translational recoding signals: Expanding the synthetic biology toolbox.

Jonathan D Dinman1.   

Abstract

Innovation follows discovery. If the 20th century was a golden age of discovery in the biomolecular biosciences, the current century may be remembered by the explosion of beneficial devices and therapies conceived by the bioengineers of the era. Much as the development of solid-state electronic components made possible the information revolution, the rational combining of millions of basic molecular control modules will enable the development of highly sophisticated biomachines that will make today's smartphones appear rudimentary. The molecular toolbox is already well-stocked, particularly in our ability to manipulate DNA, control transcription, generate functionally novel hybrid proteins, and expand the genetic code to include unnatural amino acids. This review focuses on how RNA-based regulatory modules that direct alternative readings of the genetic code can be employed as basic circuit components to expand our ability to control gene expression.
© 2019 Dinman.

Keywords:  RNA; bioengineering; circuitry; frameshift; readthrough; recoding; ribosome; synthetic biology; translation

Mesh:

Year:  2019        PMID: 30936208      PMCID: PMC6514632          DOI: 10.1074/jbc.REV119.006348

Source DB:  PubMed          Journal:  J Biol Chem        ISSN: 0021-9258            Impact factor:   5.157


  43 in total

1.  Kinetics of ribosomal pausing during programmed -1 translational frameshifting.

Authors:  J D Lopinski; J D Dinman; J A Bruenn
Journal:  Mol Cell Biol       Date:  2000-02       Impact factor: 4.272

2.  Ribosomal frameshifting efficiency and gag/gag-pol ratio are critical for yeast M1 double-stranded RNA virus propagation.

Authors:  J D Dinman; R B Wickner
Journal:  J Virol       Date:  1992-06       Impact factor: 5.103

3.  Yeast suppressors of UAA and UAG nonsense codons work efficiently in vitro via tRNA.

Authors:  R F Gesteland; M Wolfner; P Grisafi; G Fink; D Botstein; J R Roth
Journal:  Cell       Date:  1976-03       Impact factor: 41.582

4.  The RNA code and protein synthesis.

Authors:  M Nirenberg; T Caskey; R Marshall; R Brimacombe; D Kellogg; B Doctor; D Hatfield; J Levin; F Rottman; S Pestka; M Wilcox; F Anderson
Journal:  Cold Spring Harb Symp Quant Biol       Date:  1966

5.  A rare tRNA-Arg(CCU) that regulates Ty1 element ribosomal frameshifting is essential for Ty1 retrotransposition in Saccharomyces cerevisiae.

Authors:  K Kawakami; S Pande; B Faiola; D P Moore; J D Boeke; P J Farabaugh; J N Strathern; Y Nakamura; D J Garfinkel
Journal:  Genetics       Date:  1993-10       Impact factor: 4.562

6.  Torsional restraint: a new twist on frameshifting pseudoknots.

Authors:  Ewan P Plant; Jonathan D Dinman
Journal:  Nucleic Acids Res       Date:  2005-03-30       Impact factor: 16.971

7.  Ribosomal frameshifting in the CCR5 mRNA is regulated by miRNAs and the NMD pathway.

Authors:  Ashton Trey Belew; Arturas Meskauskas; Sharmishtha Musalgaonkar; Vivek M Advani; Sergey O Sulima; Wojciech K Kasprzak; Bruce A Shapiro; Jonathan D Dinman
Journal:  Nature       Date:  2014-07-09       Impact factor: 49.962

8.  RNA virus evasion of nonsense-mediated decay.

Authors:  Jared P May; Xuefeng Yuan; Erika Sawicki; Anne E Simon
Journal:  PLoS Pathog       Date:  2018-11-19       Impact factor: 6.823

9.  Programmed -1 frameshifting by kinetic partitioning during impeded translocation.

Authors:  Neva Caliskan; Vladimir I Katunin; Riccardo Belardinelli; Frank Peske; Marina V Rodnina
Journal:  Cell       Date:  2014-06-19       Impact factor: 41.582

10.  Mutational analysis of the "slippery-sequence" component of a coronavirus ribosomal frameshifting signal.

Authors:  I Brierley; A J Jenner; S C Inglis
Journal:  J Mol Biol       Date:  1992-09-20       Impact factor: 5.469

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  6 in total

1.  Translational recoding: canonical translation mechanisms reinterpreted.

Authors:  Marina V Rodnina; Natalia Korniy; Mariia Klimova; Prajwal Karki; Bee-Zen Peng; Tamara Senyushkina; Riccardo Belardinelli; Cristina Maracci; Ingo Wohlgemuth; Ekaterina Samatova; Frank Peske
Journal:  Nucleic Acids Res       Date:  2020-02-20       Impact factor: 16.971

Review 2.  Insights from structural studies of the cardiovirus 2A protein.

Authors:  Neva Caliskan; Chris H Hill
Journal:  Biosci Rep       Date:  2022-01-28       Impact factor: 3.840

Review 3.  Thinking Outside the Frame: Impacting Genomes Capacity by Programmed Ribosomal Frameshifting.

Authors:  Ricarda J Riegger; Neva Caliskan
Journal:  Front Mol Biosci       Date:  2022-02-14

Review 4.  Abracadabra, One Becomes Two: The Importance of Context in Viral -1 Programmed Ribosomal Frameshifting.

Authors:  Wesley D Penn; Suchetana Mukhopadhyay
Journal:  mBio       Date:  2022-06-23       Impact factor: 7.786

5.  Origin, Evolution and Stability of Overlapping Genes in Viruses: A Systematic Review.

Authors:  Angelo Pavesi
Journal:  Genes (Basel)       Date:  2021-05-26       Impact factor: 4.096

6.  Modulation of Viral Programmed Ribosomal Frameshifting and Stop Codon Readthrough by the Host Restriction Factor Shiftless.

Authors:  Sawsan Napthine; Chris H Hill; Holly C M Nugent; Ian Brierley
Journal:  Viruses       Date:  2021-06-25       Impact factor: 5.818

  6 in total

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